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At least 559 records · Page 31

Spatial mapping and profiling of metabolite distributions during germination

Germination is a highly complex process by which seeds begin to develop and establish themselves as viable organisms. In this paper, we utilize a combination of GC-MS, LC-fluorescence, and mass spectrometry imaging (MSI) approaches to profile and visualize the metabolic distributions of germinating seeds from two different inbreds of maize seeds, B73 and Mo17. GC and LC analyses demonstrate that the two inbreds are highly differentiated in their metabolite profiles throughout the course of germination, especially with regard to amino acids, sugar alcohols, and small organic acids. Crude dissection of the seed followed by GC-MS analysis of polar metabolites also revealed that many compounds were highly sequestered among the various seed tissue types. To further localize compounds, matrix-assisted laser desorption/ionization MSI is utilized to visualize compounds in fine detail in their native environments over the course of germination. Most notably, the fatty acyl chain-dependent differential localization of phospholipids and TAGs were observed within the embryo and radicle, showing correlation with the heterogeneous distribution of fatty acids. Furthermore, other interesting observations include unusual localization of ceramides on the endosperm/scutellum boundary, and subcellular localization of ferulate in the aleurone.

59 BASIC BIOLOGICAL SCIENCES↗

Increased bundle‐sheath leakiness of CO 2 during photosynthetic induction shows a lack of coordination between the C 4 and C 3 cycles

Summary Use of a complete dynamic model of NADP‐malic enzyme C 4 photosynthesis indicated that, during transitions from dark or shade to high light, induction of the C 4 pathway was more rapid than that of C 3 , resulting in a predicted transient increase in bundle‐sheath CO 2 leakiness ( ϕ ). Previously, ϕ has been measured at steady state; here we developed a new method, coupling a tunable diode laser absorption spectroscope with a gas‐exchange system to track ϕ in sorghum and maize through the nonsteady‐state condition of photosynthetic induction. In both species, ϕ showed a transient increase to > 0.35 before declining to a steady state of 0.2 by 1500 s after illumination. Average ϕ was 60% higher than at steady state over the first 600 s of induction and 30% higher over the first 1500 s. The transient increase in ϕ , which was consistent with model prediction, indicated that capacity to assimilate CO 2 into the C 3 cycle in the bundle sheath failed to keep pace with the rate of dicarboxylate delivery by the C 4 cycle. Because nonsteady‐state light conditions are the norm in field canopies, the results suggest that ϕ in these major crops in the field is significantly higher and energy conversion efficiency lower than previous measured values under steady‐state conditions.

59 BASIC BIOLOGICAL SCIENCES↗

Leaf cell wall properties and stomatal density influence oxygen isotope enrichment of leaf water

Measurements of oxygen isotope enrichment of leaf water above source water (Δ 18 O LW ) can improve our understanding of the interaction between leaf anatomy and physiology on leaf water transport. Models have been developed to predict Δ 18 O LW such as the string-of-lakes model, which describes the mixing of leaf water pools, and the Péclet effect model, which incorporates transpiration rate and the mixing length between unenriched xylem and enriched mesophyll water in the mesophyll (L m ) or veins (L v ). Here, in this work, we compare measurements and models of Δ 18 O LW on two cell wall composition mutants grown under two light intensities and relative humidities to evaluate cell wall properties on leaf water transport. In maize (Zea mays), the compromised ultrastructure of the suberin lamellae in the bundle sheath of the ALIPHATIC SUBERIN FERULOYL TRANSFERASE mutant (Zmasft) reduced barriers to apoplastic water movement, resulting in higher E and, potentially, L v and, consequently, lower Δ 18 O LW . The difference in Δ 18 O LW in cellulose synthase-like F6 (CslF6) mutants and wild-type of rice (Oryza sativa) grown under two light intensities co-varied with stomatal density. These results show that cell wall composition and stomatal density influence Δ 18 O LW and that stable isotopes can facilitate the development of a physiologically and anatomically explicit water transport model.

59 BASIC BIOLOGICAL SCIENCES↗

Quantitative phenotyping of crop roots with spectral electrical impedance tomography: a rhizotron study with optimized measurement design

Background: Root systems are key contributors to plant health, resilience, and, ultimately, yield of agricultural crops. To optimize plant performance, phenotyping trials are conducted to breed plants with diverse root traits. However, traditional analysis methods are often labour-intensive and invasive to the root system, therefore limiting high-throughput phenotyping. Spectral electrical impedance tomography (sEIT) could help as a non-invasive and cost-efficient alternative to optical root analysis, potentially providing 2D or 3D spatio-temporal information on root development and activity. Although impedance measurements have been shown to be sensitive to root biomass, nutrient status, and diurnal activity, only few attempts have been made to employ tomographic algorithms to recover spatially resolved information on root systems. In this study, we aim to establish relationships between tomographic electrical polarization signatures and root traits of different fine root systems (maize, pinto bean, black bean, and soy bean) under hydroponic conditions. Results: Our results show that, with the use of an optimized data acquisition scheme, sEIT is capable of providing spatially resolved information on root biomass and root surface area for all investigated root systems. We found strong correlations between the total polarization strength and the root biomass (R 2 = 0.82) and root surface area (R 2 = 0.8). Our findings suggest that the captured polarization signature is dominated by cell-scale polarization processes. Additionally, we demonstrate that the resolution characteristics of the measurement scheme can have a significant impact on the tomographic reconstruction of root traits. Conclusion: Our findings showcase that sEIT is a promising tool for the tomographic reconstruction of root traits in high-throughput root phenotyping trials and should be evaluated as a substitute for traditional, often time-consuming, root characterization methods.

59 BASIC BIOLOGICAL SCIENCES↗

Site and Bioenergy Cropping System Similarly Affect Distinct Live and Total Soil Microbial Communities

Bioenergy crops are a promising energy alternative to fossil fuels. During bioenergy feedstock production, crop inputs shape the composition of soil microbial communities, which in turn influences nutrient cycling and plant productivity. In addition to cropping inputs, site characteristics (e.g., soil texture, climate) influence bacterial and fungal communities. We explored the response of soil microorganisms to bioenergy cropping system (switchgrass vs. maize) and site (sandy loam vs. silty loam) within two long-term experimental research stations. The live and total microbial community membership was investigated using 16S and ITS amplicon sequencing of soil RNA and DNA. For both nucleic acid types, we expected fungi and prokaryotes to be differentially impacted by crop and site due their dissimilar life strategies. We also expected live communities to be more strongly affected by site and crop than the total communities due to a sensitivity to recent stimuli. Instead, we found that prokaryotic and fungal community composition was primarily driven by site with a secondary crop effect, highlighting the importance of soil texture and fertility in shaping both communities. Specific highly abundant prokaryotic and fungal taxa within live communities were indicative of site and cropping systems, providing insight into treatment-specific, agriculturally relevant microbial taxa that were obscured within total community profiles. Within live prokaryote communities, predatory Myxobacteria spp. were largely indicative of silty and switchgrass communities. Within live fungal communities, Glomeromycota spp. were solely indicative of switchgrass soils, while a few very abundant Mortierellomycota spp. were indicative of silty soils. Site and cropping system had distinct effects on the live and total communities reflecting selection forces of plant inputs and environmental conditions over time. Comparisons between RNA and DNA communities uncovered live members obscured within the total community as well as members of the relic DNA pool. The associations between live communities and relic DNA are a product of the intimate relationship between the ephemeral responses of the live community and the accumulation of DNA within necromass that contributes to soil organic matter, and in turn shapes soil microbial dynamics.

59 BASIC BIOLOGICAL SCIENCES↗

Evolution of the Cell Wall Gene Families of Grasses

Grasses and related commelinid monocot species synthesize cell walls distinct in composition from other angiosperm species. With few exceptions, the genomes of all angiosperms contain the genes that encode the enzymes for synthesis of all cell-wall polysaccharide, phenylpropanoid, and protein constituents known in vascular plants. RNA-seq analysis of transcripts expressed during development of the upper and lower internodes of maize (Zea mays) stem captured the expression of cell-wall-related genes associated with primary or secondary wall formation. High levels of transcript abundances were not confined to genes associated with the distinct walls of grasses but also of those associated with xyloglucan and pectin synthesis. Combined with proteomics data to confirm that expressed genes are translated, we propose that the distinctive cell-wall composition of grasses results from sorting downstream from their sites of synthesis in the Golgi apparatus and hydrolysis of the uncharacteristic polysaccharides and not from differential expression of synthases of grass-specific polysaccharides.

59 BASIC BIOLOGICAL SCIENCES↗

Review of Soil Organic Carbon Measurement Protocols: A US and Brazil Comparison and Recommendation

Soil organic carbon (SOC) change influences the life-cycle assessment (LCA) calculations for globally traded bio-based products. Broad agreement on the importance of SOC measurement stands in contrast with inconsistent measurement methods. This paper focuses on published SOC research on lands managed for maize ( Zea mays L.) in the U.S. and sugarcane ( Saccharum officinarum L.) in Brazil. A literature review found that reported SOC measurement protocols reflect different sampling strategies, measurement techniques, and laboratory analysis methods. Variability in sampling techniques (pits versus core samples), depths, increments for analysis, and analytical procedures (wet oxidation versus dry combustion) can influence reported SOC values. To improve consistency and comparability in future SOC studies, the authors recommend that: (a) the methods applied for each step in SOC studies be documented; (b) a defined protocol for soil pits or coring be applied; (c) samples be analyzed at 10 cm intervals for the full rooting depth and at 20 cm intervals below rooting until reaching 100 cm; (d) stratified sampling schemes be applied where possible to reflect variability across study sites; (e) standard laboratory techniques be used to differentiate among labile and stable SOC fractions; and (f) more long-term, diachronic approaches be used to assess SOC change. Here, we conclude with suggestions for future research to further improve the comparability of SOC measurements across sites and nations.

54 ENVIRONMENTAL SCIENCES↗

Evaluation of a Regional Crop Model Implementation for Sub-National Yield Assessments in Kenya

CONTEXT: Cropping system models can be used to both assess regional food security and to monitor and predict agricultural drought. Agriculture in Kenya is extremely important to both the economy and food security of the country. OBJECTIVE: This study evaluated a regional implementation of a widely used crop model, the Decision Support System for Agrotechnology Transfer (DSSAT), within a coupled modeling framework, the Regional Hydrologic Extremes Assessment System (RHEAS), over Kenya. The goal of this study was to assess the ability of RHEAS to simulate the annual variability of maize yields at the county level and evaluate the uncertainty inherent in the model and inputs. METHODS: The RHEAS system implements a stochastic ensemble approach to account for field scale variabilities in crop management practices and underlying soil and weather conditions. Satellite-derived datasets were used to evaluate the land surface component of the system and seasonally disaggregated yield for 5 years was used to assess the performance of the cropping system model. RESULTS AND CONCLUSIONS: The median correlation between RHEAS and satellite-derived soil moisture and evapotranspiration estimates were 0.78, and 0.51, respectively, indicating that the model is able to capture the key drivers of the hydrological budget. Overall, RHEAS simulated yearly yield variations with a median correlation of 0.7 with reported yields, with the best performance in the short rains season. However, across both seasons, the RHEAS model was positively biased on the order of ~1.6 MT/ha. The overall median unbiased RMSE was 0.66 MT/ha. The RHEAS system shows skill at simulating extreme departures in anomalies, and a majority of the time (62.5%) the reported yields fall within the interquartile range of the simulations. SIGNIFICANCE: One of the most important areas of improvement for the next generation of agricultural data and models is to better understand and communicate the inherent uncertainties. This is especially critical in data-limited regions. Here we present a modeling system and its implementation that begins to address these concerns. We demonstrate the ability to simulate broad trends in yields at the county level for sub-annual yields with skills that commensurate previous national/annual level studies.

Crop model↗

Utility of anthesis–silking interval information to predict grain yield under water and nitrogen limited conditions

Delayed silking relative to pollen shed, measured as the anthesis–silking interval (ASI, the period between pollen shed and silking), is a good indicator of response to abiotic stresses in maize ( Zea mays L.). This research was conducted to investigate how ASI is affected by nitrogen (N) and water availability and to assess the utility of ASI to indirectly predict grain yield (GY) under contrasting water and N treatments. Two experiments were conducted in Hancock, WI, in 2018 and 2019. One experiment (Diverse hybrids) included 302 hybrids resulting from the cross of diverse inbred lines by a single tester evaluated at four different treatment levels resulting from combining nonlimited and low N with nonlimited and low water treatments. The second experiment (NSS FAC) included a set of 408 hybrids derived from the cross of biparental doubled-haploid lines from 13 factorial populations and evaluated under nonlimited and low N treatments. Anthesis and silk time in growing degree days, and GY (Mg ha -1 ) were measured. Genomic prediction was assessed using a genomic best linear unbiased prediction model, and predictive ability was calculated as the correlation between genomic predictions and adjusted means in the different treatments. Predictive ability ranged from .15 to .49 for NSS FAC and from .06 to .51 for Diverse hybrids across traits and treatments. The ASI was a good indicator of stress and showed higher heritability than GY in the limited treatments for both experiments; however, it did not improve yield predictability.

59 BASIC BIOLOGICAL SCIENCES↗

Hydroxycinnamate Conjugates as Potential Monolignol Replacements: In vitro Lignification and Cell Wall Studies with Rosmarinic Acid

The plasticity of lignin biosynthesis should permit the inclusion of new compatible phenolic monomers, such as rosmarinic acid (RA) and analogous catechol derivatives, into cell-wall lignins that are consequently less recalcitrant to biomass processing. In vitro lignin polymerization experiments revealed that RA readily underwent peroxidase-catalyzed copolymerization with monolignols and lignin oligomers to form polymers with new benzodioxane inter-unit linkages. Incorporation of RA permitted extensive depolymerization of synthetic lignins by mild alkaline hydrolysis, presumably by cleavage of ester intra-unit linkages within RA. Copolymerization of RA with monolignols into maize cell walls by in situ peroxidases significantly enhanced alkaline lignin extractability and promoted subsequent cell wall saccharification by fungal enzymes. Incorporating RA also improved cell wall saccharification by fungal enzymes and by rumen microflora even without alkaline pretreatments, possibly by modulating lignin hydrophobicity and/or limiting cell wall cross-linking. Consequently, we anticipate that bioengineering approaches for partial monolignol substitution with RA and analogous plant hydroxycinnamates would permit more efficient utilization of plant fiber for biofuels or livestock production.

Yuki, Tobimatsu↗

Phosphorus budgets of intensively managed row crops at a long–term agroecosystem research site in the upper US Midwest

Phosphorus (P) budgets for cropping systems provide insights for keeping soil P at optimal levels for crops while avoiding excess inputs. We quantified 12 years of P inputs (fertilizer and atmospheric deposition) and outputs (harvest and leaching losses) for replicated maize (Zea mays L.)—soybean (Glycine max L.)—wheat (Triticum aestivum) crop rotations under conventional, no-till, reduced input, and biologically based (organic without compost or manure) management systems at the Kellogg Biological Station LTAR site in southwest Michigan. Conventional, no-till, and reduced input systems were fertilized between 13 and 50 kg P ha –1 depending on year. Soil test phosphorus (STP) was measured at 0- to 25-cm depth every autumn. Leached P was measured as dissolved P in the soil solution sampled beneath the rooting depth and combined with modeled percolation. Fertilization and harvest were the predominant P fluxes in the fertilized systems, whereas only harvest dominated P flux in the unfertilized organic system. Leaching losses were minor terms in the budgets, but leachate concentrations were nevertheless close to the range of concern for downstream eutrophication. Over the 12-year study period, the organic system exhibited a negative P balance (–82.0 kg P ha –1 ), coinciding with suboptimal STP levels, suggesting a need for P supplementation. In contrast, the fertilized systems showed positive P balances (mean: 70.1 kg P ha –1 ) with STP levels well above agronomic optima. Results underscore the importance of tailored P management strategies to sustain crop productivity while mitigating environmental impacts.

60 APPLIED LIFE SCIENCES↗

Long‐term continuous cropping affects ecoenzymatic stoichiometry of microbial nutrient acquisition: a case study from a Chinese Mollisol

Abstract BACKGROUND Soil‐ and plant‐produced extracellular enzymes drive nutrient cycling in soils and are assumed to regulate supply and demand for carbon (C) and nutrients within the soil. Thus, agriculture management decisions that alter the balance of plant and supplemental nutrients should directly alter extracellular enzyme activities (EEAs), and EEA stoichiometry in predictable ways. We used a 12‐year experiment that varyied three major continuous grain crops (wheat, soybean, and maize), each crossed with mineral fertilizer (WCF, SCF and MCF, respectively) or not fertilized (WC, SC and MC, respectively, as controls). In response, we measured the phospholipid fatty acids (PLFAs), EEAs and their stoichiometry to examine the changes to soil microbial nutrient demand under the continuous cropping of crops, which differed with respect to the input of plant litter and fertilizer. RESULTS Fertilizer generally decreased soil microbial biomass and enzyme activity compared to non‐fertilized soil. According to enzyme stoichiometry, microbial nutrient demand was generally C‐ and phosphorus (P)‐limited, but not nitrogen (N)‐limited. However, the degree of microbial resource limitation differed among the three crops. The enzymatic C:N ratio was significantly lower by 13.3% and 26.8%, whereas the enzymatic N:P ratio was significantly higher by 9.9% and 42.4%, in MCF than in WCF and SCF, respectively. The abundances of arbuscular mycorrhizal fungi and aerobic PLFAs were significantly higher in MCF than in WCF and SCF. CONCLUSION These findings are crucial for characterizing enzymatic activities and their stoichiometries that drive microbial metabolism with respect to understanding soil nutrient cycles and environmental conditions and optimizing practices of agricultural management. © 2021 Society of Chemical Industry.

Chen, Xu↗

Microbial responses to southward and northward Cambisol soil transplant

Abstract Soil transplant serves as a proxy to simulate climate changes. Recently, we have shown that southward transplant of black soil and northward transplant of red soil altered soil microbial communities and biogeochemical variables. However, fundamental differences in soil types have prevented direct comparison between southward and northward transplants. To tackle it, herein we report an analysis of microbial communities of Cambisol soil in an agriculture field after 4 years of adaptation to southward and northward soil transplants over large transects. Analysis of bare fallow soils revealed concurrent increase in microbial functional diversity and coarse‐scale taxonomic diversity at both transplanted sites, as detected by GeoChip 3.0 and DGGE , respectively. Furthermore, a correlation between microbial functional diversity and taxonomic diversity was detected, which was masked in maize cropped soils. Mean annual temperature, soil moisture, and nitrate (NO 3 ¯‐N) showed strong correlations with microbial communities. In addition, abundances of ammonium‐oxidizing genes ( amoA ) and denitrification genes were correlated with nitrification capacity and NO 3 ¯‐N contents, suggesting that microbial responses to soil transplant could alter microbe‐mediated biogeochemical cycle at the ecosystem level.

59 BASIC BIOLOGICAL SCIENCES↗

Imitating the “breeder's eye”: Predicting grain yield from measurements of non‐yield traits

Abstract Plant breeding relies on information gathered from field trials to select promising new crop varieties for release to farmers and to develop genomic prediction models that can enhance the efficiency of genetic improvement in future breeding cycles. However, generating the genetic marker data required to apply genomic prediction at the early stages of a breeding program remains costly for many public‐sector breeding programs as well as for many plant breeders operating in developing countries. As the pace of climate change intensifies, the time lag of developing and deploying new crop varieties requires plant breeders to make selection decisions without knowing the future environments those crop varieties will encounter in farmers’ fields. Therefore, both lower cost and higher accuracy methods for prediction of crop performance are essential for creating and maintaining resilient agricultural systems in the latter half of the 21 st century. To address this challenge, we conducted linked yield trials of 752 public maize ( Zea mays ) genotypes in two distinct environments. We developed and trained a phenotypic prediction model to predict yield from manually scored plant traits. The phenotypic prediction approach we employed outperformed genomic prediction in predicting yields in a second environment, with 8.7%–63% higher R 2 and 4%–13% less root mean square error than the genomic prediction. The phenotypic prediction has the potential to be applied to a wider range of breeding programs, including those that lack the resources to genotype large populations, such as programs in the developing world, breeding programs for specialty crops, and public sector programs.

60 APPLIED LIFE SCIENCES↗

Root water uptake of biofuel crops revealed by coupled electrical resistivity and soil water content measurements

Abstract Biofuel crops, including annuals such as maize ( Zea mays L.), soybean [ Glycine max (L.) Merr.], and canola ( Brassica napus L.), as well as high‐biomass perennial grasses such as miscanthus ( Miscanthus × giganteus J.M. Greef & Deuter ex Hodkinson & Renvoiz), are candidates for sustainable alternative energy sources. However, large‐scale conversion of croplands to perennial biofuel crops could have substantial impacts on regional water, nutrient, and C cycles due to the longer growing seasons and differences in rooting systems compared with most annual crops. However, due to the limited tools available to nondestructively study the spatiotemporal patterns of root water uptake in situ at field scales, these differences in crop water use are not well known. Geophysical imaging tools such as electrical resistivity (ER) reveal changes in water content in the soil profile. In this study, we demonstrate the use of a novel coupled hydrogeophysical approach with both time domain reflectometry soil water content and ER measurements to compare root water uptake and soil properties of an annual crop rotation with the perennial grass miscanthus, across three growing seasons (2009–2011) in southwest Michigan, USA. We estimated maximum root depths to be between 1.2 and 2.2 m, with the vertical distribution of roots being notably deeper in 2009 relative to 2010 and 2011, likely due to the drought conditions during that first year. Modeled cumulative ET of both crops was underestimated (2–34%) relative to estimates obtained from soil water drawdown in prior studies but was found to be greater in the perennial grass than the annual crops, despite shallower modeled rooting depths in 2010 and 2011.

Kuhl, Alexandria S.↗

Amino mapping: possibility to visualize amino-N compounds in the rhizosphere of Zea Mays L.

Abstract Understanding N uptake by plants, the N cycle, and their relationship to soil heterogeneity has generated a great deal of interest in the distribution of amino-N compounds in soil. Visualization of the spatial distribution of amino-N in soil can provide insights into the role of labile N in plant-microbial mechanisms of N acquisition and plant N uptake, but until now, it has remained technically challenging. Here, we describe a novel technique to visualize the amino-N distribution at the root-soil interface. The technique is based on time-lapse amino mapping (TLAM) using membranes saturated with the fluorogenic OPAME reagent (O-phthalaldehyde and β-mercaptoethanol). OPAME in the membrane reacts with organic compounds containing a NH 2 functional group at the membrane-soil interface, generating a fluorescent product visible under UV light and detectable by a digital camera. The TLAM amino-mapping technique was applied to visualize and quantify the concentration of amino-N compounds in the rhizosphere of maize (Zea MaysL.). A ten times greater amino-N concentration was detected in the rhizosphere compared to non-rhizosphere soil. The high content of amino-N was mainly associated with the root tips and was 3 times larger than the average amino-N content at seminal roots. The amino-N rhizosphere was 2 times broader around the root tips than around other parts of the roots. We concluded that TLAM is a promising approach for monitoring the fate of labile N in soils. However, the technique needs to be standardized for different soil types, plant species, and climate conditions to allow wider application.

Agriculture↗

Examination of climatological wind patterns and simulated pollen dispersion in a complex island environment

Complex terrain creates small-scale circulations which affect pollen dispersion but may be missed by meteorological observing networks and coarse-grid meteorological models. On volcanic islands, these circulations result from differing rates of surface heating between land and sea as well as rugged terrain. We simulated the transport of bentgrass, ryegrass, and maize pollen from 30 sources within the agricultural regions of the Hawaiian island Kaua’i during climatological conditions spanning season conditions and the La Niña, El Niño, and neutral phases of the El Niño-Southern Oscillation. Both pollen size and source location had major effects on predicted dispersion over and near the island. Three patterns of pollen dispersion were identified in response to prevailing wind conditions: southwest winds transported pollen inland, funneling pollen grains through valleys; east winds transported pollen over the ocean, with dispersive tails for the smallest pollen grains following the mean wind and extending as far as the island of Ni’ihau 35 km away; and northeast winds moved pollen inland counter to the prevailing flow due to a sea breeze circulation that formed over the source region. These results are the first to predict the interactions between complex island terrain and local climatology on grass pollen dispersion. As a result, they demonstrate how numerical modeling can provide guidance for field trials by illustrating the common flow regimes present in complex terrain, allowing field trials to focus on areas where successful sampling is more likely to occur.

54 ENVIRONMENTAL SCIENCES↗